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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ), 'gf_id' => 'HOM05D001087', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001087' ), 'data_identifier' => 'HOM05D001087', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001087', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '565', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p37160' => 'bna', 'A06p08730' => 'bna', 'A06p08750' => 'bna', 'A06p39490' => 'bna', 'A08p32550' => 'bna', 'A09p03110' => 'bna', 'A09p63520' => 'bna', 'Aa31LG1G1850' => 'aar', 'Aa31LG1G1860' => 'aar', 'Aa31LG1G8270' => 'aar', 'Aa31LG1G8330' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.290__291' => 'aag', 'Actinidia10293' => 'ach', 'Actinidia12857' => 'ach', 'Actinidia19533' => 'ach', 'Actinidia29573' => 'ach', 'Actinidia30744' => 'ach', 'Actinidia30745' => 'ach', 'Actinidia33161' => 'ach', 'Actinidia33162' => 'ach', 'Ah.02g113040' => 'amhyb', 'Ah.02g113050' => 'amhyb', 'Ah.02g128690' => 'amhyb', 'Ah.06g187370' => 'amhyb', 'AL1G24560' => 'aly', 'AL1G24570' => 'aly', 'AL1G55150' => 'aly', 'AL1G55860' => 'aly', 'AL5G15450' => 'aly', 'AL8G19870' => 'aly', 'Aqoxy2G01029' => 'aox', 'Aqoxy2G01030' => 'aox', 'Aqoxy3G01996' => 'aox', 'Aqoxy3G02610' => 'aox', 'Aqoxy6G00484' => 'aox', 'Aqoxy6G01387' => 'aox', 'Aqoxy7G03263' => 'aox', 'Aqoxy7G03280' => 'aox', 'Aqoxy7G03284' => 'aox', 'Aqoxy7G03285' => 'aox', 'arahy.Tifrunner.gnm1.ann1.65DI7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8WPY6U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C4QHPC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1H4BJ' => 'arhy', 'AT1G12920' => 'ath', 'AT1G12930' => 'ath', 'AT3G26618' => 'ath', 'AT5G47880' => 'ath', 'ATR0580G421' => 'atr', 'ATR0582G201' => 'atr', 'ATR0691G187' => 'atr', 'ATR0776G106' => 'atr', 'Atru.chr12.1061' => 'acertr', 'Atru.chr12.1485' => 'acertr', 'Atru.chr6.2745' => 'acertr', 'Atru.chr6.2746' => 'acertr', 'Atru.chr6.2747' => 'acertr', 'AUR62008333' => 'cqu', 'AUR62017451' => 'cqu', 'AUR62021766' => 'cqu', 'AUR62032520' => 'cqu', 'AUR62041252' => 'cqu', 'AUR62042842' => 'cqu', 'BcaB03g13158' => 'bca', 'BcaB03g13159' => 'bca', 'BcaB05g23157' => 'bca', 'BcaB07g30050' => 'bca', 'BcaB07g31741' => 'bca', 'BcaB08g34240' => 'bca', 'BcaC01g05578' => 'bca', 'BcaC03g17618' => 'bca', 'BcaC04g23929' => 'bca', 'BcaC05g25100' => 'bca', 'BcaC05g25103' => 'bca', 'BcaC05g25140' => 'bca', 'BcaC05g25142' => 'bca', 'BcaC05g25411' => 'bca', 'BolC2t11674H' => 'bol', 'BolC3t14863H' => 'bol', 'BolC5t29778H' => 'bol', 'BolC5t29780H' => 'bol', 'BolC5t30034H' => 'bol', 'BolC7t44397H' => 'bol', 'BolC8t49201H' => 'bol', 'BolC8t52241H' => 'bol', 'BolC9t53251H' => 'bol', 'BraA02t08702Z' => 'bra', 'BraA06t24070Z' => 'bra', 'BraA06t24072Z' => 'bra', 'BraA06t26864Z' => 'bra', 'BraA08t35179Z' => 'bra', 'BraA09t35949Z' => 'bra', 'BraA09t41703Z' => 'bra', 'C02p56180' => 'bna', 'C03p24740' => 'bna', 'C05p10320' => 'bna', 'C05p10340' => 'bna', 'C05p12870' => 'bna', 'C07p38780' => 'bna', 'C08p15740' => 'bna', 'C08p47020' => 'bna', 'C09p03270' => 'bna', 'CAN.G1190.8' => 'can', 'CAN.G1190.9' => 'can', 'CAN.G143.15' => 'can', 'CAN.G1433.18' => 'can', 'CAN.G435.1' => 'can', 'CAN.G473.166' => 'can', 'CAN.G473.167' => 'can', 'CAN.G551.13' => 'can', 'CAN.G915.4' => 'can', 'CANSAT64G1632' => 'cansat', 'CANSAT64G1951' => 'cansat', 'CANSAT64G2204' => 'cansat', 'CANSAT64G2487' => 'cansat', 'CARHR013260' => 'chi', 'CARHR013280' => 'chi', 'CARHR037090' => 'chi', 'CARHR039010' => 'chi', 'CARHR039020' => 'chi', 'CARHR129470' => 'chi', 'CARHR147640' => 'chi', 'CARHR184450' => 'chi', 'CARHR237660' => 'chi', 'CARHR238910' => 'chi', 'Carub.0001s1269' => 'cru', 'Carub.0001s1270' => 'cru', 'Carub.0001s3817' => 'cru', 'Carub.0001s4399' => 'cru', 'Carub.0005s0461' => 'cru', 'Carub.0008s2326' => 'cru', 'Carub.0014s0002' => 'cru', 'Ca_00019_v3' => 'car', 'Ca_08242_v3' => 'car', 'Ca_08243_v3' => 'car', 'CBR_g22389' => 'cbr', 'CBR_g30317' => 'cbr', 'Cc00_g11840' => 'ccan', 'Cc02_g09490' => 'ccan', 'Cc06_g01350' => 'ccan', 'Cc07_g01490' => 'ccan', 'Cc11_g05170' => 'ccan', 'CDE05G0125' => 'cde', 'CDE10G0752' => 'cde', 'CDE10G1135' => 'cde', 'Cfa003611' => 'cfa', 'Cfa008020' => 'cfa', 'Ciclev10014134m.g' => 'ccl', 'Ciclev10015281m.g' => 'ccl', 'Ciclev10015328m.g' => 'ccl', 'Ciclev10028480m.g' => 'ccl', 'CiPaw.02G142500' => 'cil', 'CiPaw.03G079200' => 'cil', 'CiPaw.04G007000' => 'cil', 'ClCG05G012380' => 'cla', 'ClCG05G012390' => 'cla', 'ClCG06G001640' => 'cla', 'COL.COLO4_10377' => 'col', 'COL.COLO4_12814' => 'col', 'COL.COLO4_13413' => 'col', 'COL.COLO4_28324' => 'col', 'Cpa.g.sc70.26' => 'cpa', 'Cpa.g.sc70.28' => 'cpa', 'Cpa.g.sc70.29' => 'cpa', 'Cpa.g.sc970.2' => 'cpa', 'Cpa.g.sc970.3' => 'cpa', 'Cre13.g587050' => 'cre', 'CsaV3_3G020140' => 'csa', 'CsaV3_4G024700' => 'csa', 'CsaV3_6G007620' => 'csa', 'CSS0025073' => 'camsi', 'CSS0028788' => 'camsi', 'CSS0032497' => 'camsi', 'CSS0035364' => 'camsi', 'DCAR_000957' => 'dca', 'DCAR_000958' => 'dca', 'DCAR_002425' => 'dca', 'DCAR_010349' => 'dca', 'DCAR_010835' => 'dca', 'DCAR_024570' => 'dca', 'DCAR_029488' => 'dca', 'DCAR_030587' => 'dca', 'DCAR_032217' => 'dca', 'Dinv00562' => 'din', 'Dinv08410' => 'din', 'Dinv13053' => 'din', 'Dinv44734' => 'din', 'Duzib064G0002' => 'dzi', 'Duzib068G0619' => 'dzi', 'Duzib084G0742' => 'dzi', 'Duzib138G0185' => 'dzi', 'Duzib205G1450' => 'dzi', 'Duzib213G0905' => 'dzi', 'Duzib279G0003' => 'dzi', 'ECA232G0414' => 'eca', 'ECA236G2880' => 'eca', 'ECA240G2689' => 'eca', 'ECA246G2131' => 'eca', 'ECA246G3450' => 'eca', 'ECA246G4873' => 'eca', 'EL10Ac4g08534' => 'bvu', 'EL10Ac5g10900' => 'bvu', 'EL10Ac6g13922' => 'bvu', 'Eucgr.G01904' => 'egr', 'Eucgr.H05015' => 'egr', 'Eucgr.I01561' => 'egr', 'Eucgr.J01695' => 'egr', 'FAN01G2809' => 'fan', 'FAN03G2103' => 'fan', 'FAN04G2314' => 'fan', 'FAN04G2467' => 'fan', 'FAN05G2313' => 'fan', 'FAN07G1013' => 'fan', 'FAN12G2322' => 'fan', 'FAN14G5433' => 'fan', 'FAN14G5757' => 'fan', 'FAN15G0218' => 'fan', 'FAN15G3420' => 'fan', 'FAN15G3745' => 'fan', 'FAN17G1101' => 'fan', 'FAN20G0268' => 'fan', 'FAN24G0544' => 'fan', 'FAN24G0937' => 'fan', 'FAN25G2039' => 'fan', 'FAN27G0021' => 'fan', 'FAN27G0125' => 'fan', 'FAN27G2264' => 'fan', 'FvH4_2g04311' => 'fve', 'FvH4_2g04312' => 'fve', 'FvH4_2g19650' => 'fve', 'FvH4_4g22010' => 'fve', 'FvH4_6g54490' => 'fve', 'Glyma.02G068500' => 'gma', 'Glyma.04G126700' => 'gma', 'Glyma.09G128151' => 'gma', 'Glyma.09G166000' => 'gma', 'Glyma.16G044400' => 'gma', 'Glyma.16G044500' => 'gma', 'Glyma.16G150000' => 'gma', 'Glyma.16G216100' => 'gma', 'Glyma.19G107402' => 'gma', 'Glyma.19G107500' => 'gma', 'Gohir.A03G066500' => 'ghi', 'Gohir.A07G177000' => 'ghi', 'Gohir.A08G038200' => 'ghi', 'Gohir.A11G030881' => 'ghi', 'Gohir.D03G093100' => 'ghi', 'Gohir.D07G182200' => 'ghi', 'Gohir.D08G048400' => 'ghi', 'Gohir.D11G034200' => 'ghi', 'Gorai.001G204700' => 'gra', 'Gorai.003G097000' => 'gra', 'Gorai.004G047900' => 'gra', 'Gorai.007G037000' => 'gra', 'GSVIVG01009682001' => 'vvi', 'GSVIVG01012356001' => 'vvi', 'GSVIVG01026053001' => 'vvi', 'GSVIVG01032937001' => 'vvi', 'GSVIVG01034491001' => 'vvi', 'HanXRQChr03g0090121' => 'han', 'HanXRQChr03g0090131' => 'han', 'HanXRQChr05g0162231' => 'han', 'HanXRQChr09g0243811' => 'han', 'HanXRQChr10g0278511' => 'han', 'HanXRQChr13g0414341' => 'han', 'HanXRQChr13g0418431' => 'han', 'HanXRQChr13g0418441' => 'han', 'HanXRQChr17g0550851' => 'han', 'Haze_14038' => 'cav', 'Haze_14336' => 'cav', 'Haze_14337' => 'cav', 'Haze_15915' => 'cav', 'Haze_27276' => 'cav', 'Hma1.2p1_1580F.1_g291910' => 'hma', 'HPP92_002188' => 'vpl', 'HPP92_013309' => 'vpl', 'HPP92_013310' => 'vpl', 'HPP92_013311' => 'vpl', 'HPP92_013313' => 'vpl', 'HPP92_013318' => 'vpl', 'HPP92_021630' => 'vpl', 'HPP92_021631' => 'vpl', 'HPP92_021688' => 'vpl', 'HPP92_021715' => 'vpl', 'HPP92_021716' => 'vpl', 'HPP92_021723' => 'vpl', 'Hund02685' => 'sun', 'Hund04150' => 'sun', 'Hund09377' => 'sun', 'Lalb_Chr02g0156981' => 'lal', 'Lalb_Chr06g0173861' => 'lal', 'Lalb_Chr14g0364241' => 'lal', 'Lalb_Chr22g0353901' => 'lal', 'Lj1g0002000' => 'lja', 'Lj1g0013340' => 'lja', 'Lj2g0008034' => 'lja', 'Lj2g0011140' => 'lja', 'Lj2g0026912' => 'lja', 'Lj4P108T24' => 'lonja', 'Lj4P588T31' => 'lonja', 'Lj4P600T9' => 'lonja', 'Lj4P711T30' => 'lonja', 'Lj5g0024188' => 'lja', 'Lj7A620G39' => 'lonja', 'Lj7A620G41' => 'lonja', 'Lj7A620G42' => 'lonja', 'Lj7C620T11' => 'lonja', 'Lsat_1_v5_gn_2_10661' => 'lsa', 'Lsat_1_v5_gn_2_10721' => 'lsa', 'Lsat_1_v5_gn_2_10741' => 'lsa', 'Lsat_1_v5_gn_2_25920' => 'lsa', 'Lsat_1_v5_gn_3_103380' => 'lsa', 'Lsat_1_v5_gn_3_110841' => 'lsa', 'Lsat_1_v5_gn_6_102101' => 'lsa', 'Manes.04G095500' => 'mes', 'Manes.04G095600' => 'mes', 'Manes.08G098400' => 'mes', 'Manes.11G071850' => 'mes', 'Manes.11G071900' => 'mes', 'Mapoly0006s0183' => 'mpo', 'Mapoly0055s0098' => 'mpo', 'Mapoly0125s0009' => 'mpo', 'MBI07_g11062_MAGBIO' => 'mbi', 'MBI14_g42933_MAGBIO' => 'mbi', 'MCO05G019' => 'mco', 'MD06G1115500' => 'mdo', 'MD06G1116600' => 'mdo', 'MD07G1033800' => 'mdo', 'MD09G1000300' => 'mdo', 'MD10G1170000' => 'mdo', 'MD10G1170100' => 'mdo', 'MD13G1135000' => 'mdo', 'MD16G1045700' => 'mdo', 'MD16G1130800' => 'mdo', 'Medtr4g103720' => 'mtr', 'Medtr4g103730' => 'mtr', 'Medtr6g081000' => 'mtr', 'Medtr6g478090' => 'mtr', 'Medtr6g478120' => 'mtr', 'Medtr7g084860' => 'mtr', 'Medtr7g084880' => 'mtr', 'Medtr7g109660' => 'mtr', 'MELO3C003104.2' => 'cme', 'MELO3C014745.2' => 'cme', 'MELO3C022369.2' => 'cme', 'Migut.F00007' => 'egut', 'Migut.F00858' => 'egut', 'Migut.J00615' => 'egut', 'Migut.N03325' => 'egut', 'MSTRG.22431' => 'ama', 'MSTRG.25423' => 'ama', 'MSTRG.27556' => 'ama', 'MSTRG.3036' => 'ama', 'MSTRG.9038' => 'ama', 'MSTRG.9039' => 'ama', 'Nitab4.5_0000136g0080' => 'nta', 'Nitab4.5_0000519g0370' => 'nta', 'Nitab4.5_0000519g0380' => 'nta', 'Nitab4.5_0000519g0400' => 'nta', 'Nitab4.5_0001036g0080' => 'nta', 'Nitab4.5_0001047g0060' => 'nta', 'Nitab4.5_0002545g0060' => 'nta', 'Nitab4.5_0002545g0080' => 'nta', 'Nitab4.5_0002587g0020' => 'nta', 'Nitab4.5_0002901g0050' => 'nta', 'Nitab4.5_0002901g0060' => 'nta', 'Nitab4.5_0002901g0070' => 'nta', 'Nitab4.5_0003787g0010' => 'nta', 'Nitab4.5_0005199g0050' => 'nta', 'Nitab4.5_0005214g0010' => 'nta', 'Nitab4.5_0006719g0010' => 'nta', 'Nitab4.5_0012938g0010' => 'nta', 'Nitab4.5_0028800g0010' => 'nta', 'Nn1g00961' => 'nnu', 'Nn4g22026' => 'nnu', 'Nn5g27596' => 'nnu', 'Nn6g33918' => 'nnu', 'Nn7g38133' => 'nnu', 'Oeu033285.1' => 'oeu', 'Oeu035282.1' => 'oeu', 'Oeu039253.1' => 'oeu', 'Oeu039589.1' => 'oeu', 'Oeu043806.1' => 'oeu', 'Oeu062515.1' => 'oeu', 'Oeu062517.2' => 'oeu', 'Os01g0939500' => 'osa', 'Os03g0702800' => 'osa', 'Os05g0373900' => 'osa', 'Os07g0587400' => 'osa', 'Os11g0543800' => 'osa', 'Peaxi162Scf00038g00036' => 'pax', 'Peaxi162Scf00082g00223' => 'pax', 'Peaxi162Scf00125g00041' => 'pax', 'Peaxi162Scf00177g01114' => 'pax', 'Peaxi162Scf00281g00313' => 'pax', 'Peaxi162Scf00281g00315' => 'pax', 'Peaxi162Scf00420g00935' => 'pax', 'Peaxi162Scf00420g00936' => 'pax', 'Peaxi162Scf00420g00943' => 'pax', 'Peaxi162Scf00420g00945' => 'pax', 'Peaxi162Scf00519g00044' => 'pax', 'PGR042G1457' => 'pgr', 'PGR119G0194' => 'pgr', 'PGR119G0316' => 'pgr', 'PGR119G0540' => 'pgr', 'PGR119G1108' => 'pgr', 'PGR142G2493' => 'pgr', 'PGSC0003DMG400007882' => 'stu', 'PGSC0003DMG400023496' => 'stu', 'PGSC0003DMG401007604' => 'stu', 'PGSC0003DMG401011162' => 'stu', 'PGSC0003DMG402011162' => 'stu', 'Phvul.001G097600' => 'pvu', 'Phvul.001G097700' => 'pvu', 'Phvul.004G067400' => 'pvu', 'Phvul.004G141500' => 'pvu', 'Potri.001G072000' => 'ptr', 'Potri.003G159000' => 'ptr', 'Potri.014G141000' => 'ptr', 'Potri.014G141100' => 'ptr', 'Pp3c10_7760' => 'ppa', 'Pp3c14_8290' => 'ppa', 'Pp3c14_8293' => 'ppa', 'Pp3c17_12020' => 'ppa', 'Pp3c26_1110' => 'ppa', 'Pp3c9_910' => 'ppa', 'Pp3c9_950' => 'ppa', 'PRCOL_00003265' => 'pco', 'Prupe.1G210300' => 'ppe', 'Prupe.3G315900' => 'ppe', 'Prupe.3G316100' => 'ppe', 'Prupe.8G207900' => 'ppe', 'Psat0s2188g0040' => 'psa', 'Psat0s3545g0040' => 'psa', 'Psat0s4626g0040' => 'psa', 'Psat0s4626g0080' => 'psa', 'Psat1g120560' => 'psa', 'PSO017G2426' => 'pso', 'PSO017G2606' => 'pso', 'PSO210G5981' => 'pso', 'PSO210G7740' => 'pso', 'PSO339G0996' => 'pso', 'PSO478G2418' => 'pso', 'PSO541G0320' => 'pso', 'PSO675G1124' => 'pso', 'PSO832G0590' => 'pso', 'QL02p063896' => 'qlo', 'QL02p063912' => 'qlo', 'QL03p056148' => 'qlo', 'QL04p087096' => 'qlo', 'QL05p015587' => 'qlo', 'QL05p015727' => 'qlo', 'QL09p027607' => 'qlo', 'QL09p027623' => 'qlo', 'QL09p027633' => 'qlo', 'RcHm_v2.0_Chr1g0366171' => 'rch', 'RcHm_v2.0_Chr2g0176781' => 'rch', 'RcHm_v2.0_Chr4g0428211' => 'rch', 'RcHm_v2.0_Chr6g0253761' => 'rch', 'RcHm_v2.0_Chr6g0285401' => 'rch', 'RcHm_v2.0_Chr7g0218031' => 'rch', 'Rhsim06G0086200' => 'rsi', 'Rhsim07G0199900' => 'rsi', 'Rhsim07G0200100' => 'rsi', 'Rhsim08G0036900' => 'rsi', 'RhsimUnG0073800' => 'rsi', 'Sabra01G0050600' => 'sbr', 'Sabra03G0115400' => 'sbr', 'Sabra14G0106300' => 'sbr', 'Sabra14G0106400' => 'sbr', 'SalBow3G2192' => 'sbo', 'SalBow4G0396' => 'sbo', 'SalBow4G1044' => 'sbo', 'SalBow6G3486' => 'sbo', 'SalBow6G3864' => 'sbo', 'SalBow6G5895' => 'sbo', 'Sc02g0006390' => 'sci', 'Sc15g0006850' => 'sci', 'Sc15g0006860' => 'sci', 'Sc16g0004210' => 'sci', 'Sed0003323' => 'sed', 'Sed0004915' => 'sed', 'Sed0022800' => 'sed', 'SEGI_00424' => 'sgi', 'SEGI_02591' => 'sgi', 'SEGI_07003' => 'sgi', 'SEGI_07298' => 'sgi', 'SEGI_22854' => 'sgi', 'SEGI_28776' => 'sgi', 'SEGI_33424' => 'sgi', 'SEGI_34243' => 'sgi', 'SEGI_37099' => 'sgi', 'SGA_v2.0_scaffold1385G53933' => 'sas', 'SGA_v2.0_scaffold24G10511' => 'sas', 'SGA_v2.0_scaffold272G46361' => 'sas', 'SGA_v2.0_scaffold28G12038' => 'sas', 'SGA_v2.0_scaffold44G16961' => 'sas', 'SGA_v2.0_scaffold64G21952' => 'sas', 'SHI06234' => 'shi', 'SHI06299' => 'shi', 'SMO119G0489' => 'smo', 'SMO145G0118' => 'smo', 'SMO252G0012' => 'smo', 'SMO252G0026' => 'smo', 'SMO353G0092' => 'smo', 'Solyc02g094600.2' => 'sly', 'Solyc02g094610.1' => 'sly', 'Solyc05g055210.3' => 'sly', 'Solyc07g006130.3' => 'sly', 'Solyc11g006660.3' => 'sly', 'Solyc12g010520.3' => 'sly', 'Sopen02g039270' => 'spe', 'Sopen05g033650' => 'spe', 'Sopen07g002240' => 'spe', 'Sopen11g002590' => 'spe', 'Sopen12g005530' => 'spe', 'Sp1g11490' => 'spa', 'Sp1g11500' => 'spa', 'Sp1g37740' => 'spa', 'Sp2g15730' => 'spa', 'Sp2g18380' => 'spa', 'TAR365G0361' => 'tar', 'TAR622G0002' => 'tar', 'TAR629G2385' => 'tar', 'TAR718G0002' => 'tar', 'TAR718G0003' => 'tar', 'TAR718G0004' => 'tar', 'THA.LOC104799994' => 'tha', 'THA.LOC104805290' => 'tha', 'THA.LOC104805291' => 'tha', 'THA.LOC104807188' => 'tha', 'THA.LOC104807998' => 'tha', 'Thecc.01G234300' => 'tca', 'Thecc.03G085700' => 'tca', 'Thecc.04G053100' => 'tca', 'Thecc.04G053300' => 'tca', 'Thhalv10004173m.g' => 'esa', 'Thhalv10004248m.g' => 'esa', 'Thhalv10006676m.g' => 'esa', 'Thhalv10007678m.g' => 'esa', 'Thhalv10011692m.g' => 'esa', 'Thhalv10017610m.g' => 'esa', 'TPR.G20660' => 'tpr', 'TPR.G24075' => 'tpr', 'TPR.G24482' => 'tpr', 'TPR.G31052' => 'tpr', 'TWI18G0120' => 'twi', 'TWI32G0903' => 'twi', 'TWI36G0251' => 'twi', 'TWI75G0009' => 'twi', 'TWI75G1453' => 'twi', 'unitig_32.g11900' => 'ugi', 'unitig_736.g22524' => 'ugi', 'unitig_748.g8768' => 'ugi', 'vmacro04771' => 'vma', 'vmacro21223' => 'vma', 'vmacro22106' => 'vma', 'VMungo0464G0365' => 'vmu', 'VMungo0464G1143' => 'vmu', 'VMungo1383G1232' => 'vmu', 'VMungo1383G1594' => 'vmu', 'Zm00001eb108120' => 'zma', 'Zm00001eb197740' => 'zma', 'Zm00001eb216780' => 'zma', 'Zm00001eb285170' => 'zma' ) $gf_id = 'HOM05D001087' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001087' ) $data_identifier = 'HOM05D001087' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 10, 'arhy' => (int) 4, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 10, 'cru' => (int) 7, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 3, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 9, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 5, 'hma' => (int) 1, 'vpl' => (int) 12, 'sun' => (int) 3, 'lal' => (int) 4, 'lja' => (int) 6, 'lonja' => (int) 8, 'lsa' => (int) 7, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 8, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 18, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 3, 'sgi' => (int) 9, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 5, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb285170' $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